Name: Brucella thiophenivorans AK220
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 1895

Type strain:

Species: Brucella thiophenivorans

Strain Designation: AK220

Culture col. no.: DSM 7216, CCM 7492, CCUG 55412

Strain history: <- J.R. Andreesen <- A. Kretzer, AK 220

NCBI tax ID(s): 571255 (species)

SI-ID 48387

DSM 7216, CCM 7492, CCUG 55412

Section

Brucella thiophenivorans AK220 is a mesophilic, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from waste water.

colony-forming
Gram-negative
rod-shaped
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Brucellaceae*
	Genus	*Brucella*
	Species	**Brucella thiophenivorans**
	Full Scientific Name (LPSN)	Brucella thiophenivorans (Kämpfer et al. 2008) Hördt et al. 2020

Synonym

Ochrobactrum thiophenivorans

Information on morphological and physiological properties Morphology

[Ref.: #23342]	Gram stain	negative

[Ref.: #23342]	Cell length	2 µm

[Ref.: #23342]	Cell shape	rod-shaped

[Ref.: #23342]	Motility	no

[Ref.: #23342]	Colony size	2 mm
[Ref.: #23342]	Colony color	beige, translucent
[Ref.: #23342]	Colony shape	circular
[Ref.: #23342]	Incubation period	1 day

Information on culture and growth conditions Culture and growth conditions

[Ref.: #3055]

Culture medium

CASO AGAR (MERCK 105458) (DSMZ Medium 220)

[Ref.: #3055]

Culture medium growth

[Ref.: #3055]

Culture medium link

Medium recipe at MediaDive

[Ref.: #3055]

Culture medium composition

expand / minimize

[Ref.: #3055]

Culture medium

MINERAL MEDIUM (NAGEL AND ANDREESEN) (DSMZ Medium 461)

[Ref.: #3055]

Culture medium growth

[Ref.: #3055]

Culture medium link

Medium recipe at MediaDive

[Ref.: #3055]

Culture medium composition

expand / minimize

[Ref.: #23342]

Culture medium

MacConkey

[Ref.: #23342]

Culture medium growth

[Ref.: #23342]

Culture medium

Nutrient agar (NA)

[Ref.: #23342]

Culture medium growth

[Ref.: #23342]

Culture medium

PYE agar

[Ref.: #23342]

Culture medium growth

[Ref.: #23342]

Culture medium

Reasoner's 2A agar (R2A)

[Ref.: #23342]

Culture medium growth

[Ref.: #23342]

Culture medium

Trypticase Soy Agar (TSA)

[Ref.: #23342]

Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #3055]			growth	30 °C
[Ref.: #23342]			growth	25-30 °C

[Ref.: #3055]	Temperature range	mesophilic
[Ref.: #23342]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #23342]

Ability of spore formation

[Ref.: #3055]

Name of produced compound

thiophene-2-carboxylate CoA esterase

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #23342]	3-hydroxybutyrate ChEBI	+	assimilation
[Ref.: #23342]	4-hydroxybenzoate ChEBI	-	assimilation
[Ref.: #23342]	beta-alanine ChEBI	+	assimilation
[Ref.: #23342]	cellobiose ChEBI	-	assimilation
[Ref.: #23342]	cis-aconitate ChEBI	-	assimilation
[Ref.: #23342]	citrate ChEBI	-	assimilation
[Ref.: #23342]	D-fructose ChEBI	+	assimilation
[Ref.: #23342]	D-gluconate ChEBI	+	assimilation
[Ref.: #23342]	D-sorbitol ChEBI	+	assimilation
[Ref.: #23342]	gamma-aminobutyric acid ChEBI	+	assimilation
[Ref.: #23342]	gamma-L-glutamate-4-nitroanilide	-	hydrolysis
[Ref.: #23342]	L-aspartate ChEBI	+	assimilation
[Ref.: #23342]	L-histidine ChEBI	-	assimilation
[Ref.: #23342]	L-leucine ChEBI	-	assimilation
[Ref.: #23342]	L-proline-4-nitroanilide	+	hydrolysis
[Ref.: #23342]	L-rhamnose ChEBI	-	assimilation
[Ref.: #23342]	maltitol ChEBI	-	assimilation
[Ref.: #23342]	maltose ChEBI	-	assimilation
[Ref.: #23342]	myo-inositol ChEBI	+	assimilation
[Ref.: #23342]	N-acetylgalactosamine ChEBI	+	assimilation
[Ref.: #23342]	N-acetylglucosamine ChEBI	+/-	assimilation
[Ref.: #23342]	p-nitrophenyl phenyl phosphonate ChEBI	+/-	hydrolysis
[Ref.: #23342]	ribitol ChEBI	-	assimilation
[Ref.: #23342]	suberic acid ChEBI	-	assimilation
[Ref.: #23342]	sucrose ChEBI	-	assimilation
[Ref.: #23342]	trans-aconitate ChEBI	-	assimilation
[Ref.: #23342]	trehalose ChEBI	-	assimilation
	Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #23342]		cytochrome oxidase	+	1.9.3.1

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	denitrification	100	2 of 2
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	valine metabolism	100	9 of 9
[Ref.: #66794]	ketogluconate metabolism	100	8 of 8
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	Entner Doudoroff pathway	100	10 of 10
[Ref.: #66794]	allantoin degradation	100	9 of 9
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	threonine metabolism	100	10 of 10
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	propanol degradation	100	7 of 7
[Ref.: #66794]	tetrahydrofolate metabolism	92.86	13 of 14
[Ref.: #66794]	pentose phosphate pathway	90.91	10 of 11
[Ref.: #66794]	propionate fermentation	90	9 of 10
[Ref.: #66794]	CO2 fixation in Crenarchaeota	88.89	8 of 9
[Ref.: #66794]	serine metabolism	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	glutamate and glutamine metabolism	85.71	24 of 28
[Ref.: #66794]	photosynthesis	85.71	12 of 14
[Ref.: #66794]	citric acid cycle	85.71	12 of 14
[Ref.: #66794]	ubiquinone biosynthesis	85.71	6 of 7
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	phenylalanine metabolism	84.62	11 of 13
[Ref.: #66794]	glycolate and glyoxylate degradation	83.33	5 of 6
[Ref.: #66794]	proline metabolism	81.82	9 of 11
[Ref.: #66794]	lipoate biosynthesis	80	4 of 5
[Ref.: #66794]	flavin biosynthesis	80	12 of 15
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	vitamin B12 metabolism	79.41	27 of 34
[Ref.: #66794]	alanine metabolism	79.31	23 of 29
[Ref.: #66794]	heme metabolism	78.57	11 of 14
[Ref.: #66794]	molybdenum cofactor biosynthesis	77.78	7 of 9
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	77.78	7 of 9
[Ref.: #66794]	lipid A biosynthesis	77.78	7 of 9
[Ref.: #66794]	NAD metabolism	77.78	14 of 18
[Ref.: #66794]	leucine metabolism	76.92	10 of 13
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	degradation of sugar acids	76	19 of 25
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	biotin biosynthesis	75	3 of 4
[Ref.: #66794]	degradation of sugar alcohols	75	12 of 16
[Ref.: #66794]	butanoate fermentation	75	3 of 4
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	purine metabolism	73.4	69 of 94
[Ref.: #66794]	vitamin B6 metabolism	72.73	8 of 11
[Ref.: #66794]	oxidative phosphorylation	72.53	66 of 91
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	degradation of pentoses	71.43	20 of 28
[Ref.: #66794]	lipid metabolism	70.97	22 of 31
[Ref.: #66794]	glycolysis	70.59	12 of 17
[Ref.: #66794]	lysine metabolism	69.05	29 of 42
[Ref.: #66794]	non-pathway related	68.42	26 of 38
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	IAA biosynthesis	66.67	2 of 3
[Ref.: #66794]	arginine metabolism	66.67	16 of 24
[Ref.: #66794]	methane metabolism	66.67	2 of 3
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	methionine metabolism	65.38	17 of 26
[Ref.: #66794]	pyrimidine metabolism	64.44	29 of 45
[Ref.: #66794]	tryptophan metabolism	63.16	24 of 38
[Ref.: #66794]	dTDPLrhamnose biosynthesis	62.5	5 of 8
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	urea cycle	61.54	8 of 13
[Ref.: #66794]	phenylacetate degradation (aerobic)	60	3 of 5
[Ref.: #66794]	myo-inositol biosynthesis	60	6 of 10
[Ref.: #66794]	metabolism of amino sugars and derivatives	60	3 of 5
[Ref.: #66794]	histidine metabolism	58.62	17 of 29
[Ref.: #66794]	glutathione metabolism	57.14	8 of 14
[Ref.: #66794]	tyrosine metabolism	57.14	8 of 14
[Ref.: #66794]	cysteine metabolism	55.56	10 of 18
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	50	6 of 12
[Ref.: #66794]	sulfopterin metabolism	50	2 of 4
[Ref.: #66794]	4-hydroxyphenylacetate degradation	50	5 of 10
[Ref.: #66794]	ribulose monophosphate pathway	50	1 of 2
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	quinate degradation	50	1 of 2
[Ref.: #66794]	coenzyme M biosynthesis	50	5 of 10
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	lactate fermentation	50	2 of 4
[Ref.: #66794]	mannosylglycerate biosynthesis	50	1 of 2
[Ref.: #66794]	cyclohexanol degradation	50	2 of 4
[Ref.: #66794]	isoprenoid biosynthesis	50	13 of 26
[Ref.: #66794]	ascorbate metabolism	50	11 of 22
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	polyamine pathway	47.83	11 of 23
[Ref.: #66794]	sulfate reduction	46.15	6 of 13
[Ref.: #66794]	metabolism of disaccharids	45.45	5 of 11
[Ref.: #66794]	phenol degradation	45	9 of 20
[Ref.: #66794]	4-hydroxymandelate degradation	44.44	4 of 9
[Ref.: #66794]	nitrate assimilation	44.44	4 of 9
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	glycogen metabolism	40	2 of 5
[Ref.: #66794]	ethylmalonyl-CoA pathway	40	2 of 5
[Ref.: #66794]	3-phenylpropionate degradation	40	6 of 15
[Ref.: #66794]	gallate degradation	40	2 of 5
[Ref.: #66794]	vitamin K metabolism	40	2 of 5
[Ref.: #66794]	degradation of hexoses	38.89	7 of 18
[Ref.: #66794]	arachidonic acid metabolism	38.89	7 of 18
[Ref.: #66794]	androgen and estrogen metabolism	37.5	6 of 16
[Ref.: #66794]	cholesterol biosynthesis	36.36	4 of 11
[Ref.: #66794]	d-xylose degradation	36.36	4 of 11
[Ref.: #66794]	sulfoquinovose degradation	33.33	1 of 3
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	pantothenate biosynthesis	33.33	2 of 6
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	30.77	4 of 13
[Ref.: #66794]	benzoyl-CoA degradation	28.57	2 of 7
[Ref.: #66794]	glycogen biosynthesis	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	bile acid biosynthesis, neutral pathway	23.53	4 of 17
[Ref.: #66794]	phenylpropanoid biosynthesis	23.08	3 of 13
		Only first 10 entries are displayed. Click here to see all.

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #3055]	Sample type/isolated from	waste water
[Ref.: #3055]	Geographic location (country and/or sea, region)	Göttingen
[Ref.: #3055]	Country	Germany
[Ref.: #3055]	Country ISO 3 Code	DEU
[Ref.: #3055]	Continent	Europe

[Ref.: #60578]	Sample type/isolated from	Waste water
[Ref.: #60578]	Sampling date	2000
[Ref.: #60578]	Country	Germany
[Ref.: #60578]	Country ISO 3 Code	DEU
[Ref.: #60578]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Engineered

#Waste

#Wastewater

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AM490617 (>99% sequence identity) for Ochrobactrum from Microbeatlas

Aquatic Samples	61
Soil Samples	35
Animal Samples	183
Plant Samples	31
Total Samples	310

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #3055]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #3055]	Ochrobactrum thiophenivorans partial 16S rRNA gene, type strain DSM 7216	AM490617	1387	ENA	571255 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Brucella thiophenivorans DSM 7216	GCA_002252445	contig	GenBank	571255 tax ID	*
[Ref.: #66792]	Ochrobactrum thiophenivorans strain DSM 7216	571255.8	wgs	PATRIC	571255 tax ID	*
[Ref.: #66792]	Brucella thiophenivorans DSM 7216	2854902268	draft	JGI IMG/M	571255 tax ID	*

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Ochrobactrum thiophenivorans strain DSM 7216 PATRIC: 571255.8
[Ref.: #69480]	gram-positive	no	98.216	yes
[Ref.: #69480]	anaerobic	no	98.508	no
[Ref.: #69480]	halophile	no	90.287	no
[Ref.: #69480]	spore-forming	no	97.007	no
[Ref.: #69480]	glucose-util	yes	91.975	no
[Ref.: #69480]	thermophile	no	98.836	no
[Ref.: #69480]	flagellated	no	90.457	yes
[Ref.: #69480]	aerobic	yes	89.247	no
[Ref.: #69480]	motile	no	63.843	yes
[Ref.: #69480]	glucose-ferment	no	90.385	no

Availability in culture collections External links

[Ref.: #3055]

Culture collection no.

DSM 7216, CCM 7492, CCUG 55412

[Ref.: #71539]

SI-ID 48387

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Ochrobactrum rhizosphaerae sp. nov. and Ochrobactrum thiophenivorans sp. nov., isolated from the environment.	Kampfer P, Sessitsch A, Schloter M, Huber B, Busse HJ, Scholz HC	Int J Syst Evol Microbiol	10.1099/ijs.0.65407-0	2008	*

References

#3055

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 7216

#20215

Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )

#23342

Peter Kämpfer, Angela Sessitsch, Michael Schloter, Birgit Huber,Hans-Jürgen Busse, Holger C. Scholz: Ochrobactrum rhizosphaerae sp. nov. and Ochrobactrum thiophenivorans sp. nov., isolated from the environment. IJSEM 58: 1426 - 1431 2008 ( DOI 10.1099/ijs.0.65407-0 , PubMed 18523190 )

#60578 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 55412

#66792

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#69479

João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#71539

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID48387.1 )

* These data were automatically processed and therefore are not curated

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Ochrobactrum thiophenivorans strain DSM 7216

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